Sample 3300025554

Basic Information
IMG/M Taxon OID	3300025554 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0111376 \| Gp0101343 \| Ga0210060
Sample Name	Wetland microbial communities from San Francisco Bay, California, USA, that impact long-term carbon sequestration - Joice_CattailNLB_D2 (SPAdes)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	181204193
Sequencing Scaffolds	58
Novel Protein Genes	63
Associated Families	43

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	5
All Organisms → cellular organisms → Bacteria → Proteobacteria	3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Chromatiales → Chromatiaceae	3
All Organisms → cellular organisms → Archaea	1
All Organisms → cellular organisms → Bacteria	11
All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria	1
Not Available	20
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium	2
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Ignavibacteriae → Ignavibacteria → Ignavibacteriales → Ignavibacteriaceae → Ignavibacterium → Ignavibacterium album	1
All Organisms → cellular organisms → Bacteria → FCB group	4
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Ignavibacteriae → Ignavibacteria → Ignavibacteriales → Ignavibacteriaceae → unclassified Ignavibacteriaceae → Ignavibacteriaceae bacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	1
All Organisms → cellular organisms → Archaea → Asgard group → Candidatus Heimdallarchaeota → Candidatus Heimdallarchaeota archaeon	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	1

Ecosystem Assignment (GOLD)
Name	Natural And Restored Wetland Microbial Communities From The San Francisco Bay, California, Usa, That Impact Long-Term Carbon Sequestration
Type	Environmental
Taxonomy	Environmental → Aquatic → Marine → Wetlands → Unclassified → Natural And Restored Wetlands → Natural And Restored Wetland Microbial Communities From The San Francisco Bay, California, Usa, That Impact Long-Term Carbon Sequestration

Alternative Ecosystem Assignments
Environment Ontology (ENVO)	Unclassified
Earth Microbiome Project Ontology (EMPO)	Free-living → Saline → Water (saline)

Location Information
Location	USA: San Francisco Bay, California
Coordinates	Lat. (^o)	38.197102	Long. (^o)	-122.010033	Alt. (m)	N/A	Depth (m)	N/A
Location on Map

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Family	Category	Number of Sequences	3D Structure?
F000388	Metagenome / Metatranscriptome	1201	Y
F007538	Metagenome / Metatranscriptome	349	Y
F008223	Metagenome / Metatranscriptome	337	Y
F008498	Metagenome / Metatranscriptome	332	Y
F016087	Metagenome / Metatranscriptome	250	Y
F016971	Metagenome / Metatranscriptome	243	Y
F018371	Metagenome / Metatranscriptome	235	Y
F018557	Metagenome / Metatranscriptome	234	Y
F023130	Metagenome / Metatranscriptome	211	Y
F029006	Metagenome	189	Y

Scaffold	Taxonomy	Length	IMG/M Link
Ga0210060_1000764	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	8602	Open in IMG/M
Ga0210060_1000831	All Organisms → cellular organisms → Bacteria → Proteobacteria	7835	Open in IMG/M
Ga0210060_1001008	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	6652	Open in IMG/M
Ga0210060_1002004	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Chromatiales → Chromatiaceae	4140	Open in IMG/M
Ga0210060_1002373	All Organisms → cellular organisms → Archaea	3692	Open in IMG/M
Ga0210060_1002426	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	3643	Open in IMG/M
Ga0210060_1003336	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	2974	Open in IMG/M
Ga0210060_1003437	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Chromatiales → Chromatiaceae	2925	Open in IMG/M
Ga0210060_1003449	All Organisms → cellular organisms → Bacteria	2918	Open in IMG/M
Ga0210060_1003513	All Organisms → cellular organisms → Bacteria	2883	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0210060_1000764	Ga0210060_10007645	F059476	MAQQGNTQQSTRMIITVVVLVLVALGFFAASFFALTK
Ga0210060_1000831	Ga0210060_100083110	F034932	MRRVRIESDSHDLIAGFVAGVEWVNDSAVAVVDLDYRGPTAFVVLEDRDASGEDEVRRLTPGGIAGKE
Ga0210060_1000831	Ga0210060_10008312	F062769	MTDLSTFSAWLTSATRSAILVVRARVYRAREQYPELRSEANAILKRITQELAARGEYDRRCLV
Ga0210060_1001008	Ga0210060_10010087	F008223	MGLFDRLFAKKPRKPTATDEINSIIGRFTTATIMGVDREELGRYPARQYMVMAFHYGAIEYLARQYGLDETQTLGIFVAFIDRYFNMPISETGSISERLQGFHDNADERRYLLAGVDVFRRWHEQNERRAPLLLGEMLKDA
Ga0210060_1002004	Ga0210060_10020046	F071910	MRRIAIAALVVALLGAFGLSLGLSAADAVDRAVERHSAGVEHTLSL
Ga0210060_1002373	Ga0210060_10023736	F035352	MPNYSKKPILSANDEEYTLLIEVSEEFWKQKNDRTLREKFGSPAEIVIRNHLLRRTLNLSMNPKIVLQGSKIKNALLLLKKDVDPNQENYTFNDVRMIMEIKNNSVGGKILENGKREDPNKVLRFRFNELEAKTKVRNFGVIVLSETLLPPKTPYKYRFKENAIGKENCKVFTLVARELYPRGGLYIKSNLTEMLQKGQMKKTGEFQHLISYLKNV
Ga0210060_1002426	Ga0210060_10024263	F069741	LENITFDVDELSRLDRMEQAQRLEEAARRIDEVQRAAADDPDSLSWVEQQRQYLVDMQHLIFEC
Ga0210060_1003336	Ga0210060_10033363	F089490	MYRLMKSEKFTLDHLTAGLGSFYRQTQVKHFPQFRPALGACEVANNSGRSRYYLLNELGQEYFGGTWVD
Ga0210060_1003437	Ga0210060_10034374	F071910	MRRILIAALVVALGAFALEVGLSAADAVERAIEQRAAAVERALSL
Ga0210060_1003449	Ga0210060_10034494	F052687	YYLLTMETVEDVKVTGKLQISQQIGNYVKASQTDDEAYFAVVEGKIKNNLGKPIKNVFIKYMIAGQETSATVFDVAPGQEIHFNTRGVNTSASNPEYDFVGIYYD
Ga0210060_1003513	Ga0210060_10035131	F077315	MVICKASTLYLSRFACFQVWALLLLLGLLIPSQAAEALKPDALSQAQATLKRLEQQLATAQATTAQELKTLRKEIATVRSSAQDCLQQAEPKIEILDSELDILQPAKPKDTQAKTAEETQPAEQPEAPVSPAIARQLQDLQSRKASLEGRIATCKL
Ga0210060_1003963	Ga0210060_10039634	F052687	VTRFLAILLLLAAVGGGLYYLLTMETVEDVKVTGKLQISQQFGNYVKASQADDGSYFAVVEGKIKNNLGKPIKNVFIKYMIAGQETSATVFDVAPGQEIHFNTRGVNTSASNPEYDFLGIYYD
Ga0210060_1004203	Ga0210060_10042032	F086688	LEKEILFEGKESTSSVKIKEFNSQGASLEISLKGKVIGKIEGFILSTHTILMKLDRTSEVEIKSIIFSNGEPIFISGKDAGKVIDPTPTGKIEGNLTFQTPSQRLSYLNSAKGWTEALYNIATGEYNFKVYTVK
Ga0210060_1004595	Ga0210060_10045952	F016087	MKTLWGSFGKFVDVLVTLVLVVMFTALAFSIGYHMGFSVGLDTKVTWVGEKYTMKVTGRDNR
Ga0210060_1004601	Ga0210060_10046012	F034932	MRRVRIESESHDLIAGFVAGVEWVNDSAVAVVDLDYRGPTAFVVLEDRDGSGEDEVRRLTSDGIAEKE
Ga0210060_1004734	Ga0210060_10047343	F089490	MYRLMKSEKFTLDHLTSGLVSFYRQTQVKRFGRLRAALGACEVSNNGGGSRHYLLNEFGQEYYGGTWID
Ga0210060_1006558	Ga0210060_10065582	F058543	METVTICASINEKKKAEFFQTMEPLTGLVENQCNDLDIRVKADNSLIIKITFDGKEQMERNFYNNEFTILKGSVKSLCENVIIKVNESLLNNN
Ga0210060_1006718	Ga0210060_10067181	F000388	MKVLFVCKKYFQTEDDKVYFFEPLEEEISIEDMQKIVDANEKIIKELKDGKNPNSL
Ga0210060_1009143	Ga0210060_10091432	F058543	METVTILASINEKKKAEFFQTMESLTGLVESQCNDLDIRVKDDNSLIIKITFDGKDQMEKNFYNNEFNILKGSVKSLCENVIIKVNESLLNNN
Ga0210060_1009358	Ga0210060_10093582	F016971	MDMAIQHRPGDVTNVVEIVVHVKEDLGEVQQHQVVSALEKTDGIIGAEFCPLRNHLVLAKYNKDIFSSQEVLKSFYSLNLDARLIGPI
Ga0210060_1010985	Ga0210060_10109852	F076231	MMHLKTNKTGGAADISEFSGFISTKQNSIISLTKLVVLISVILAVLMVVSK
Ga0210060_1017534	Ga0210060_10175343	F037108	MSADEQALWEEATSQLGFHARPGHDWLDTLNRLWRKNRFVMSMDGMLKLPEAPPVLTRAMLSITRERWPLERLVPLVHVDAHDRARPKRDDRPILLLEWQDRHFLIDGINRINRRRRERLTGPHEVIVIHGRAT
Ga0210060_1020933	Ga0210060_10209332	F023130	MTRRYWVPATALFLSSIMAVIGSVSQDAVAGIAALSRSTDASTVSAPECVPAMIRPAECFAHHPPRDVSARYWMRVIVFLVILLLILWLIYRSFTGWMPMIS
Ga0210060_1020974	Ga0210060_10209742	F034003	MKKRRKRNPALKKTNQLSFDFSLNDPIEIHTPKSNISDLRRELAWEHRPIIEIVKS
Ga0210060_1022751	Ga0210060_10227512	F076224	KNAPGDKYIFVTPDSIFEESYLFDPVLAEKNLKWTEKQIKYNEQKVKEFTLNLKYDSTFKYYSEMKSGHPFTVVIDSNICRVDIPDFTNPEISIPEIASIDPLIEQATNNIHFYAYKIPKIEKSKSEIKIEYYNDDSVYSYVVNYNMLDIDSIVQANAGTDFYNLERLKDARPFDDTMLIKYQFDRDYYNRYYSDDEFKKQMEELQKELQQLSKDVNNQKIRVHSEVTKSPKK
Ga0210060_1024365	Ga0210060_10243652	F062769	MTDLNTFSTWLTSATRSAILVVRARVYRAREQHPELRSEANALLKRITRELAARGEYDRRCLV
Ga0210060_1024706	Ga0210060_10247062	F076224	LFDPVVAEKKLKWTEKHIKANEKQIKEFTLKLKYDSTFKYYAEMKNGQPFTVAFDSNICRVDIPNFAVSEVPIPEIAAIDPLIEQATNNIHFYAYKIPKIEKSKSEIKIEYYNDDSVYSYVVNYNTLNIDSLVQANAGTDLYNLENFKPVKPSDDTMLIKYQIDRNYFHKYYSDDEFKKQMEELQKQLQELSRDLQNKKIRVHTEVTKSPGK
Ga0210060_1026722	Ga0210060_10267222	F007538	EQGAKAALGGRSAAAAETEKDRRIRQLERILGRKSLEIEILKNVVGE
Ga0210060_1027631	Ga0210060_10276311	F052687	VTRFLAILLLLAAVGGGLYYLLTMETVEDVKVTGKLQISQQIGNYVKASQTDDEAYFAVVEGKIKNNLGKPIKNVFIKYMIAGQETSATVFDVAPGQEIHFNTRGVNTSASNPEYDFVGI
Ga0210060_1028656	Ga0210060_10286561	F016087	MKKLWGSFGKIVDVLVTLVLVVMFTALAFSIGYHVGFSVGLDTKVTWVGEKYTMKVTGRD
Ga0210060_1029389	Ga0210060_10293891	F066901	MKHPGEAQVAWQICKLLSELDVLLWNLYWDEFEALYEKEETEKYWGETIHTDQDACQT
Ga0210060_1029460	Ga0210060_10294601	F076231	MMHLKPNKGGTADISEFSGIISSKQNSSIISLTKIVVVISVLLAVLMVVSR
Ga0210060_1030202	Ga0210060_10302022	F029006	MNKVIIALMAIYFIGDPGLQYLSWLGELKVYIVAAAIALVSMPWIASQLDG
Ga0210060_1031853	Ga0210060_10318532	F034003	RKRIPSPTRSDQLSFDFNTNDPIEIHKPKFDISDLRKELAWEHRPIIEIVKS
Ga0210060_1031880	Ga0210060_10318801	F034003	MKKRRPRNHSLKKTNQLSFDFSANDPIEIHTPKSDISDLRKELAWEHRPIIEIVKS
Ga0210060_1035517	Ga0210060_10355171	F016971	MNQVAQHLPAEEKCAVEVVVYIKKDLGEDQQDLVISALKQTNGIMGAEFCVMRNHLVLAKYDKEIMSSQDVLKSFNSLNLEAKLVGPI
Ga0210060_1039266	Ga0210060_10392662	F071802	MGAKTSKPNYDSLITKILIVLVILNIAGDVLAAAFFLWDPSLGELSVYGGLIASFAGKNGAVMITSAILLGYAVVYAVSVFGLLSKLKWAPPLVIAVSVVNRVLALGVIFEPNVAFLIW
Ga0210060_1042090	Ga0210060_10420901	F064729	RQQGQLAMGELNDWVKYWRKTFSKCFKIHKDSRPHKQAYAELSDYLNNVEESADREELDATVLWAVKFMQRMHELEKEIGLLVLDKKIPSVKPAGDEQRTKR
Ga0210060_1042543	Ga0210060_10425432	F099975	LRKIKEIKGLRGDVLQYVAQGIPLIDAEMAGKSHLWMKTN
Ga0210060_1043865	Ga0210060_10438652	F105195	MTVLLIWSLVDTQPPRIITSDKRVIDLSETDPAIWASYLSEENKRRVLAAVRRWETAITAGANAIESHGYAVSGIGVDFQTWLTNERESCSS
Ga0210060_1047301	Ga0210060_10473011	F052687	VGKFLTIVILLTALGGGIYYLLSMETVEDVKVTGKLQISQQFGSYVMASQKDNTPYYAVVEGKIKNNLGKPIKNIFIKYMIAGQETSATVFDLAPGQEINFNTSGVATSASNPEYDFIGLYYD
Ga0210060_1049608	Ga0210060_10496081	F008498	VPLAGTSHIYRVKRRLWNDSIEDVLCRLFIGKTLHVCCGKSQLGDVRIDADPENEPDIICDAANMTAYVTDGMFETVLCDPPYNGQFQWNHDLLRELARVASKRIIFQHWFIPANPDGRYKKAQERFALSDLLVWQPKTYFGRVQVVSVFDAT
Ga0210060_1051860	Ga0210060_10518602	F064351	WPNQSAAANGLSAVRSSVAGIRERTVRSAAAEAVAELGRYAQNG
Ga0210060_1061578	Ga0210060_10615781	F100549	VKNPPILISIIGFFAALAGLAWIVIGLRMLGFDWFGLLGDLQRFEQTGLWGWLAIIVGVLWLAAGLGLWALQPWAWAFAVVVAAISLFEAFLWMLEYFGSGIGFAAALLPLVILFYLNSASVKKAFGLDRDMM
Ga0210060_1062837	Ga0210060_10628371	F062232	DSGLRVDTDGTCSHPTNTFLHLVTDIEFAPPDSGIAEGMTCGAGQSLTFDETDYLMLNKENGTSVTTYFVSRYSASESSVGCNDLLGYTIVTFEGSAQPLFLSMRVLPFFADSNRMMASIVENISASEIVRVAETYLHECGHQCGLLHDGDQPDCEDDTTLRIAKVMDPGGSVRRAFTRLQWCMVRNSWYATSAALTPFAQAPELPDSGSIPAP
Ga0210060_1065213	Ga0210060_10652132	F029273	MDIDPITKELLESLLQEVPKRTSRTIVSRNTKIKRATGQLSAIAARDKNDPLYKRMVFYREKYYKYRAMIHKKYSPRVRSKARR
Ga0210060_1068025	Ga0210060_10680252	F105196	MQIIDRCRDPYGSLSDSRKALLEQLFATPDQCLWERARGLIIRAVPIVTLENAVRSVRKSADTGQVPDPFTLYRALRYAVDYDTKGTVPASGGICK
Ga0210060_1072088	Ga0210060_10720882	F029006	MNKIIIALMAIYFLGDPDLQYLAWLGDMRLYIVAAAIAVVSMPWIAEQLDG
Ga0210060_1072399	Ga0210060_10723991	F058257	KLRSSIRATAMYSDVRLRAPIEVSGNDVERALFEQSTEELAVARVFEQLRGAPAERAAEALNHALEVNIFEVLVQGWTTVPAVRTAVQLSTLMERPPALVRLDRHNVASMSRVVLDSCVAQCALPPLRLTLEIVADVRSATLAAREGRIELVALGETLVNARLKYKSVLVKEHATAVSGVPRDPFKRRASASERHESVDIH
Ga0210060_1075146	Ga0210060_10751461	F071910	MRHIVVAALIAALPGAFGLALGRSAANAVERAVERHAAGVERALSVQDAANPTNP
Ga0210060_1075449	Ga0210060_10754492	F069422	ILAQSGDWAHVDIDEDGKPDGYVRTADLTPNLATMPPWKSS
Ga0210060_1082544	Ga0210060_10825442	F034003	MKKRKKRNSVTAKPNQLSFDFNLNIPIEIHTPKSDISDLRKELAWEHRPIIEIVKS
Ga0210060_1082904	Ga0210060_10829041	F018557	MANEKTGRPIFFPKKLVLYGNIALAVWIVLDAAAFLLYDITIGIVFLIVELIAIYGVLHLVGCLRPCYNCIKCTHGMGRLAALYFGKRILKDYKYSYKLPTAIFFTLFIGAFPAAFAFYSAVQDFTIIKSALFVVLLALTIFS
Ga0210060_1084474	Ga0210060_10844742	F053661	KEVGKVVDMKDYYQTNKGRLLGIGGILILVGLVLYFARGQEAVLVLPIVGIVLFIAGVIYKPRKKTENVASEAQ
Ga0210060_1085373	Ga0210060_10853732	F102138	DEDYDVLVMQNKVRELTTRQQSRTLPEIRRYFGEYLSDKLYGMNYKVTILNDERNKIIVFTHDSFTKRNALEKFHVTVVNDLRILGFKQIRYKWYELEKLEEEKYIHYNFSDLPDNEPRRFNLSVLKNQ
Ga0210060_1088302	Ga0210060_10883021	F044013	VRAAITPRPISASAIRAALARGDAAAVRGLLPPAVLAYIERNRLYRPGQDAT
Ga0210060_1095135	Ga0210060_10951352	F059980	MGFSGGFEQGKPATALPELDWFIPGNILQVNPKSAAITGRA
Ga0210060_1097086	Ga0210060_10970861	F077315	MMNCRASTLFLSRFARCQVWVLRLLLGLLIPAQAAEAVEPDALPQAQATLERLEEQLATARTANAQELKTLRKEIATVRSTAQDCLQQAEPKIEILDSELAILQPEKRKDTQKKTAQEAQPAEQPEAPVSPAIAGQLQDLLSSKASLEGRIAICKLLLLKSNY
Ga0210060_1097615	Ga0210060_10976151	F078289	IVVPLYGFNSLVRHEDIPKMRELGISQEVIQYFISNQTSSVSSEDVIKMKQSGLNNDDILSAIKSDLYRPEQTSTSMKEAELIAKLKESGMSDEAVLQFIQTVKSTRRVDSDGNVTKQYTNESHRTQYPTTGATFPKLDNYGYDPSNGRFLFFVKPQNQQ
Ga0210060_1100107	Ga0210060_11001071	F018371	MDYSNIIKPKRLTDMQEMEVHVNGPEGANRLYIYSGMAEVEIRGGLPHPRWTLEVICFELGRTYNLSDESIIKINASAALAGGRMDGVASFAGWKIFGAAGELDNESSRVRMNIAAGARDTQAFLEQI
Ga0210060_1104070	Ga0210060_11040702	F102138	VLQNKVRELTIRQQLRALPEIRKYFGEYLSDKLNGMNYKVTILNDERNKIIVFTHDSFTGRAALEIFHNTVANDLRALGFKQIRYKWYELEKYKEEKYIHYNFSDLPDNESRRFNLSILKNQ
Ga0210060_1106775	Ga0210060_11067751	F029006	MAIYFVGDPHLQYLAWLGDLKLYIVAAAIALVSMPW
Ga0210060_1108591	Ga0210060_11085912	F074181	DHIVFAVWFVGLGYIVMWLLSSPDLLLLPPALHVLGVASAMFVPVRLVLRAARRRRAAVDAVAARIPATVPRSPRRKLSYPPRPVKPRSHFGLRGMRD

Showing 1 to 63 of 63 entries

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300025554: Wetland microbial communities from San Francisco Bay, California, USA, that impact long-term carbon sequestration - Joice_CattailNLB_D2 (SPAdes)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences